---
_id: '487'
abstract:
- lang: eng
text: In this paper we study network architecture for unlicensed cellular networking
for outdoor coverage in TV white spaces. The main technology proposed for TV white
spaces is 802.11af, a Wi-Fi variant adapted for TV frequencies. However, 802.11af
is originally designed for improved indoor propagation. We show that long links,
typical for outdoor use, exacerbate known Wi-Fi issues, such as hidden and exposed
terminal, and significantly reduce its efficiency. Instead, we propose CellFi,
an alternative architecture based on LTE. LTE is designed for long-range coverage
and throughput efficiency, but it is also designed to operate in tightly controlled
and centrally managed networks. CellFi overcomes these problems by designing an
LTE-compatible spectrum database component, mandatory for TV white space networking,
and introducing an interference management component for distributed coordination.
CellFi interference management is compatible with existing LTE mechanisms, requires
no explicit communication between base stations, and is more efficient than CSMA
for long links. We evaluate our design through extensive real world evaluation
on of-the-shelf LTE equipment and simulations. We show that, compared to 802.11af,
it increases coverage by 40% and reduces median flow completion times by 2.3x.
author:
- first_name: Ghufran
full_name: Baig, Ghufran
last_name: Baig
- first_name: Bozidar
full_name: Radunovic, Bozidar
last_name: Radunovic
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: Matthew
full_name: Balkwill, Matthew
last_name: Balkwill
- first_name: Thomas
full_name: Karagiannis, Thomas
last_name: Karagiannis
- first_name: Lili
full_name: Qiu, Lili
last_name: Qiu
citation:
ama: 'Baig G, Radunovic B, Alistarh D-A, Balkwill M, Karagiannis T, Qiu L. Towards
unlicensed cellular networks in TV white spaces. In: Proceedings of the 2017
13th International Conference on Emerging Networking EXperiments and Technologies.
ACM; 2017:2-14. doi:10.1145/3143361.3143367'
apa: 'Baig, G., Radunovic, B., Alistarh, D.-A., Balkwill, M., Karagiannis, T., &
Qiu, L. (2017). Towards unlicensed cellular networks in TV white spaces. In Proceedings
of the 2017 13th International Conference on emerging Networking EXperiments and
Technologies (pp. 2–14). Incheon, South Korea: ACM. https://doi.org/10.1145/3143361.3143367'
chicago: Baig, Ghufran, Bozidar Radunovic, Dan-Adrian Alistarh, Matthew Balkwill,
Thomas Karagiannis, and Lili Qiu. “Towards Unlicensed Cellular Networks in TV
White Spaces.” In Proceedings of the 2017 13th International Conference on
Emerging Networking EXperiments and Technologies, 2–14. ACM, 2017. https://doi.org/10.1145/3143361.3143367.
ieee: G. Baig, B. Radunovic, D.-A. Alistarh, M. Balkwill, T. Karagiannis, and L.
Qiu, “Towards unlicensed cellular networks in TV white spaces,” in Proceedings
of the 2017 13th International Conference on emerging Networking EXperiments and
Technologies, Incheon, South Korea, 2017, pp. 2–14.
ista: 'Baig G, Radunovic B, Alistarh D-A, Balkwill M, Karagiannis T, Qiu L. 2017.
Towards unlicensed cellular networks in TV white spaces. Proceedings of the 2017
13th International Conference on emerging Networking EXperiments and Technologies.
CoNEXT: Conference on emerging Networking EXperiments and Technologies, 2–14.'
mla: Baig, Ghufran, et al. “Towards Unlicensed Cellular Networks in TV White Spaces.”
Proceedings of the 2017 13th International Conference on Emerging Networking
EXperiments and Technologies, ACM, 2017, pp. 2–14, doi:10.1145/3143361.3143367.
short: G. Baig, B. Radunovic, D.-A. Alistarh, M. Balkwill, T. Karagiannis, L. Qiu,
in:, Proceedings of the 2017 13th International Conference on Emerging Networking
EXperiments and Technologies, ACM, 2017, pp. 2–14.
conference:
end_date: 2017-12-15
location: Incheon, South Korea
name: 'CoNEXT: Conference on emerging Networking EXperiments and Technologies'
start_date: 2017-12-12
date_created: 2018-12-11T11:46:45Z
date_published: 2017-11-28T00:00:00Z
date_updated: 2023-02-23T12:21:11Z
day: '28'
department:
- _id: DaAl
doi: 10.1145/3143361.3143367
language:
- iso: eng
month: '11'
oa_version: None
page: 2 - 14
publication: Proceedings of the 2017 13th International Conference on emerging Networking
EXperiments and Technologies
publication_identifier:
isbn:
- 978-145035422-6
publication_status: published
publisher: ACM
publist_id: '7333'
quality_controlled: '1'
scopus_import: 1
status: public
title: Towards unlicensed cellular networks in TV white spaces
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '512'
abstract:
- lang: eng
text: 'The fixation probability is the probability that a new mutant introduced
in a homogeneous population eventually takes over the entire population. The fixation
probability is a fundamental quantity of natural selection, and known to depend
on the population structure. Amplifiers of natural selection are population structures
which increase the fixation probability of advantageous mutants, as compared to
the baseline case of well-mixed populations. In this work we focus on symmetric
population structures represented as undirected graphs. In the regime of undirected
graphs, the strongest amplifier known has been the Star graph, and the existence
of undirected graphs with stronger amplification properties has remained open
for over a decade. In this work we present the Comet and Comet-swarm families
of undirected graphs. We show that for a range of fitness values of the mutants,
the Comet and Cometswarm graphs have fixation probability strictly larger than
the fixation probability of the Star graph, for fixed population size and at the
limit of large populations, respectively. '
article_number: '82'
article_processing_charge: No
author:
- first_name: Andreas
full_name: Pavlogiannis, Andreas
id: 49704004-F248-11E8-B48F-1D18A9856A87
last_name: Pavlogiannis
orcid: 0000-0002-8943-0722
- first_name: Josef
full_name: Tkadlec, Josef
id: 3F24CCC8-F248-11E8-B48F-1D18A9856A87
last_name: Tkadlec
orcid: 0000-0002-1097-9684
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Martin
full_name: Nowak, Martin
last_name: Nowak
citation:
ama: 'Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. Amplification on undirected
population structures: Comets beat stars. Scientific Reports. 2017;7(1).
doi:10.1038/s41598-017-00107-w'
apa: 'Pavlogiannis, A., Tkadlec, J., Chatterjee, K., & Nowak, M. (2017). Amplification
on undirected population structures: Comets beat stars. Scientific Reports.
Nature Publishing Group. https://doi.org/10.1038/s41598-017-00107-w'
chicago: 'Pavlogiannis, Andreas, Josef Tkadlec, Krishnendu Chatterjee, and Martin
Nowak. “Amplification on Undirected Population Structures: Comets Beat Stars.”
Scientific Reports. Nature Publishing Group, 2017. https://doi.org/10.1038/s41598-017-00107-w.'
ieee: 'A. Pavlogiannis, J. Tkadlec, K. Chatterjee, and M. Nowak, “Amplification
on undirected population structures: Comets beat stars,” Scientific Reports,
vol. 7, no. 1. Nature Publishing Group, 2017.'
ista: 'Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. 2017. Amplification on
undirected population structures: Comets beat stars. Scientific Reports. 7(1),
82.'
mla: 'Pavlogiannis, Andreas, et al. “Amplification on Undirected Population Structures:
Comets Beat Stars.” Scientific Reports, vol. 7, no. 1, 82, Nature Publishing
Group, 2017, doi:10.1038/s41598-017-00107-w.'
short: A. Pavlogiannis, J. Tkadlec, K. Chatterjee, M. Nowak, Scientific Reports
7 (2017).
date_created: 2018-12-11T11:46:53Z
date_published: 2017-03-06T00:00:00Z
date_updated: 2023-02-23T12:26:57Z
day: '06'
ddc:
- '004'
department:
- _id: KrCh
doi: 10.1038/s41598-017-00107-w
ec_funded: 1
file:
- access_level: open_access
checksum: 7d05cbdd914e194a019c0f91fb64e9a8
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:18:35Z
date_updated: 2020-07-14T12:46:36Z
file_id: '5357'
file_name: IST-2018-938-v1+1_2017_Pavlogiannis_Amplification_on.pdf
file_size: 1536783
relation: main_file
file_date_updated: 2020-07-14T12:46:36Z
has_accepted_license: '1'
intvolume: ' 7'
issue: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication: Scientific Reports
publication_identifier:
issn:
- '20452322'
publication_status: published
publisher: Nature Publishing Group
publist_id: '7307'
pubrep_id: '938'
quality_controlled: '1'
related_material:
record:
- id: '5449'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: 'Amplification on undirected population structures: Comets beat stars'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2017'
...
---
_id: '513'
abstract:
- lang: eng
text: 'We present an experimental setup that creates a shear flow with zero mean
advection velocity achieved by counterbalancing the nonzero streamwise pressure
gradient by moving boundaries, which generates plane Couette-Poiseuille flow.
We obtain experimental results in the transitional regime for this flow. Using
flow visualization, we characterize the subcritical transition to turbulence in
Couette-Poiseuille flow and show the existence of turbulent spots generated by
a permanent perturbation. Due to the zero mean advection velocity of the base
profile, these turbulent structures are nearly stationary. We distinguish two
regions of the turbulent spot: the active turbulent core, which is characterized
by waviness of the streaks similar to traveling waves, and the surrounding region,
which includes in addition the weak undisturbed streaks and oblique waves at the
laminar-turbulent interface. We also study the dependence of the size of these
two regions on Reynolds number. Finally, we show that the traveling waves move
in the downstream (Poiseuille) direction.'
article_number: '043904'
author:
- first_name: Lukasz
full_name: Klotz, Lukasz
id: 2C9AF1C2-F248-11E8-B48F-1D18A9856A87
last_name: Klotz
orcid: 0000-0003-1740-7635
- first_name: Grégoire M
full_name: Lemoult, Grégoire M
id: 4787FE80-F248-11E8-B48F-1D18A9856A87
last_name: Lemoult
- first_name: Idalia
full_name: Frontczak, Idalia
last_name: Frontczak
- first_name: Laurette
full_name: Tuckerman, Laurette
last_name: Tuckerman
- first_name: José
full_name: Wesfreid, José
last_name: Wesfreid
citation:
ama: 'Klotz L, Lemoult GM, Frontczak I, Tuckerman L, Wesfreid J. Couette-Poiseuille
flow experiment with zero mean advection velocity: Subcritical transition to turbulence.
Physical Review Fluids. 2017;2(4). doi:10.1103/PhysRevFluids.2.043904'
apa: 'Klotz, L., Lemoult, G. M., Frontczak, I., Tuckerman, L., & Wesfreid, J.
(2017). Couette-Poiseuille flow experiment with zero mean advection velocity:
Subcritical transition to turbulence. Physical Review Fluids. American
Physical Society. https://doi.org/10.1103/PhysRevFluids.2.043904'
chicago: 'Klotz, Lukasz, Grégoire M Lemoult, Idalia Frontczak, Laurette Tuckerman,
and José Wesfreid. “Couette-Poiseuille Flow Experiment with Zero Mean Advection
Velocity: Subcritical Transition to Turbulence.” Physical Review Fluids.
American Physical Society, 2017. https://doi.org/10.1103/PhysRevFluids.2.043904.'
ieee: 'L. Klotz, G. M. Lemoult, I. Frontczak, L. Tuckerman, and J. Wesfreid, “Couette-Poiseuille
flow experiment with zero mean advection velocity: Subcritical transition to turbulence,”
Physical Review Fluids, vol. 2, no. 4. American Physical Society, 2017.'
ista: 'Klotz L, Lemoult GM, Frontczak I, Tuckerman L, Wesfreid J. 2017. Couette-Poiseuille
flow experiment with zero mean advection velocity: Subcritical transition to turbulence.
Physical Review Fluids. 2(4), 043904.'
mla: 'Klotz, Lukasz, et al. “Couette-Poiseuille Flow Experiment with Zero Mean Advection
Velocity: Subcritical Transition to Turbulence.” Physical Review Fluids,
vol. 2, no. 4, 043904, American Physical Society, 2017, doi:10.1103/PhysRevFluids.2.043904.'
short: L. Klotz, G.M. Lemoult, I. Frontczak, L. Tuckerman, J. Wesfreid, Physical
Review Fluids 2 (2017).
date_created: 2018-12-11T11:46:54Z
date_published: 2017-04-01T00:00:00Z
date_updated: 2021-01-12T08:01:16Z
day: '01'
department:
- _id: BjHo
doi: 10.1103/PhysRevFluids.2.043904
intvolume: ' 2'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1704.02619
month: '04'
oa: 1
oa_version: Preprint
publication: Physical Review Fluids
publication_status: published
publisher: American Physical Society
publist_id: '7306'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Couette-Poiseuille flow experiment with zero mean advection velocity: Subcritical
transition to turbulence'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2017'
...
---
_id: '514'
abstract:
- lang: eng
text: 'Orientation in space is represented in specialized brain circuits. Persistent
head direction signals are transmitted from anterior thalamus to the presubiculum,
but the identity of the presubicular target neurons, their connectivity and function
in local microcircuits are unknown. Here, we examine how thalamic afferents recruit
presubicular principal neurons and Martinotti interneurons, and the ensuing synaptic
interactions between these cells. Pyramidal neuron activation of Martinotti cells
in superficial layers is strongly facilitating such that high-frequency head directional
stimulation efficiently unmutes synaptic excitation. Martinotti-cell feedback
plays a dual role: precisely timed spikes may not inhibit the firing of in-tune
head direction cells, while exerting lateral inhibition. Autonomous attractor
dynamics emerge from a modelled network implementing wiring motifs and timing
sensitive synaptic interactions in the pyramidal - Martinotti-cell feedback loop.
This inhibitory microcircuit is therefore tuned to refine and maintain head direction
information in the presubiculum.'
article_number: '16032'
author:
- first_name: Jean
full_name: Simonnet, Jean
last_name: Simonnet
- first_name: Mérie
full_name: Nassar, Mérie
last_name: Nassar
- first_name: Federico
full_name: Stella, Federico
id: 39AF1E74-F248-11E8-B48F-1D18A9856A87
last_name: Stella
orcid: 0000-0001-9439-3148
- first_name: Ivan
full_name: Cohen, Ivan
last_name: Cohen
- first_name: Bertrand
full_name: Mathon, Bertrand
last_name: Mathon
- first_name: Charlotte
full_name: Boccara, Charlotte
id: 3FC06552-F248-11E8-B48F-1D18A9856A87
last_name: Boccara
orcid: 0000-0001-7237-5109
- first_name: Richard
full_name: Miles, Richard
last_name: Miles
- first_name: Desdemona
full_name: Fricker, Desdemona
last_name: Fricker
citation:
ama: Simonnet J, Nassar M, Stella F, et al. Activity dependent feedback inhibition
may maintain head direction signals in mouse presubiculum. Nature Communications.
2017;8. doi:10.1038/ncomms16032
apa: Simonnet, J., Nassar, M., Stella, F., Cohen, I., Mathon, B., Boccara, C. N.,
… Fricker, D. (2017). Activity dependent feedback inhibition may maintain head
direction signals in mouse presubiculum. Nature Communications. Nature
Publishing Group. https://doi.org/10.1038/ncomms16032
chicago: Simonnet, Jean, Mérie Nassar, Federico Stella, Ivan Cohen, Bertrand Mathon,
Charlotte N. Boccara, Richard Miles, and Desdemona Fricker. “Activity Dependent
Feedback Inhibition May Maintain Head Direction Signals in Mouse Presubiculum.”
Nature Communications. Nature Publishing Group, 2017. https://doi.org/10.1038/ncomms16032.
ieee: J. Simonnet et al., “Activity dependent feedback inhibition may maintain
head direction signals in mouse presubiculum,” Nature Communications, vol.
8. Nature Publishing Group, 2017.
ista: Simonnet J, Nassar M, Stella F, Cohen I, Mathon B, Boccara CN, Miles R, Fricker
D. 2017. Activity dependent feedback inhibition may maintain head direction signals
in mouse presubiculum. Nature Communications. 8, 16032.
mla: Simonnet, Jean, et al. “Activity Dependent Feedback Inhibition May Maintain
Head Direction Signals in Mouse Presubiculum.” Nature Communications, vol.
8, 16032, Nature Publishing Group, 2017, doi:10.1038/ncomms16032.
short: J. Simonnet, M. Nassar, F. Stella, I. Cohen, B. Mathon, C.N. Boccara, R.
Miles, D. Fricker, Nature Communications 8 (2017).
date_created: 2018-12-11T11:46:54Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:01:16Z
day: '01'
ddc:
- '571'
department:
- _id: JoCs
doi: 10.1038/ncomms16032
file:
- access_level: open_access
checksum: 76d8a2b72a58e56adb410ec37dfa7eee
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:31Z
date_updated: 2020-07-14T12:46:36Z
file_id: '5083'
file_name: IST-2018-937-v1+1_2017_Stella_Activity_dependent.pdf
file_size: 2948357
relation: main_file
file_date_updated: 2020-07-14T12:46:36Z
has_accepted_license: '1'
intvolume: ' 8'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- '20411723'
publication_status: published
publisher: Nature Publishing Group
publist_id: '7305'
pubrep_id: '937'
quality_controlled: '1'
scopus_import: 1
status: public
title: Activity dependent feedback inhibition may maintain head direction signals
in mouse presubiculum
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2017'
...
---
_id: '515'
abstract:
- lang: eng
text: 'The oxidative phosphorylation electron transport chain (OXPHOS-ETC) of the
inner mitochondrial membrane is composed of five large protein complexes, named
CI-CV. These complexes convert energy from the food we eat into ATP, a small molecule
used to power a multitude of essential reactions throughout the cell. OXPHOS-ETC
complexes are organized into supercomplexes (SCs) of defined stoichiometry: CI
forms a supercomplex with CIII2 and CIV (SC I+III2+IV, known as the respirasome),
as well as with CIII2 alone (SC I+III2). CIII2 forms a supercomplex with CIV (SC
III2+IV) and CV forms dimers (CV2). Recent cryo-EM studies have revealed the structures
of SC I+III2+IV and SC I+III2. Furthermore, recent work has shed light on the
assembly and function of the SCs. Here we review and compare these recent studies
and discuss how they have advanced our understanding of mitochondrial electron
transport.'
article_type: original
author:
- first_name: James A
full_name: Letts, James A
id: 322DA418-F248-11E8-B48F-1D18A9856A87
last_name: Letts
orcid: 0000-0002-9864-3586
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
citation:
ama: 'Letts JA, Sazanov LA. Clarifying the supercomplex: The higher-order organization
of the mitochondrial electron transport chain. Nature Structural and Molecular
Biology. 2017;24(10):800-808. doi:10.1038/nsmb.3460'
apa: 'Letts, J. A., & Sazanov, L. A. (2017). Clarifying the supercomplex: The
higher-order organization of the mitochondrial electron transport chain. Nature
Structural and Molecular Biology. Nature Publishing Group. https://doi.org/10.1038/nsmb.3460'
chicago: 'Letts, James A, and Leonid A Sazanov. “Clarifying the Supercomplex: The
Higher-Order Organization of the Mitochondrial Electron Transport Chain.” Nature
Structural and Molecular Biology. Nature Publishing Group, 2017. https://doi.org/10.1038/nsmb.3460.'
ieee: 'J. A. Letts and L. A. Sazanov, “Clarifying the supercomplex: The higher-order
organization of the mitochondrial electron transport chain,” Nature Structural
and Molecular Biology, vol. 24, no. 10. Nature Publishing Group, pp. 800–808,
2017.'
ista: 'Letts JA, Sazanov LA. 2017. Clarifying the supercomplex: The higher-order
organization of the mitochondrial electron transport chain. Nature Structural
and Molecular Biology. 24(10), 800–808.'
mla: 'Letts, James A., and Leonid A. Sazanov. “Clarifying the Supercomplex: The
Higher-Order Organization of the Mitochondrial Electron Transport Chain.” Nature
Structural and Molecular Biology, vol. 24, no. 10, Nature Publishing Group,
2017, pp. 800–08, doi:10.1038/nsmb.3460.'
short: J.A. Letts, L.A. Sazanov, Nature Structural and Molecular Biology 24 (2017)
800–808.
date_created: 2018-12-11T11:46:54Z
date_published: 2017-10-05T00:00:00Z
date_updated: 2021-01-12T08:01:17Z
day: '05'
ddc:
- '572'
department:
- _id: LeSa
doi: 10.1038/nsmb.3460
ec_funded: 1
file:
- access_level: open_access
checksum: 9bc7e8c41b43636dd7566289e511f096
content_type: application/pdf
creator: lsazanov
date_created: 2019-11-07T12:51:07Z
date_updated: 2020-07-14T12:46:36Z
file_id: '6993'
file_name: 29893_2_merged_1501257589_red.pdf
file_size: 4118385
relation: main_file
file_date_updated: 2020-07-14T12:46:36Z
has_accepted_license: '1'
intvolume: ' 24'
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Submitted Version
page: 800 - 808
project:
- _id: 2590DB08-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '701309'
name: Atomic-Resolution Structures of Mitochondrial Respiratory Chain Supercomplexes
(H2020)
publication: Nature Structural and Molecular Biology
publication_identifier:
issn:
- '15459993'
publication_status: published
publisher: Nature Publishing Group
publist_id: '7304'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Clarifying the supercomplex: The higher-order organization of the mitochondrial
electron transport chain'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2017'
...
---
_id: '520'
abstract:
- lang: eng
text: Cyanobacteria are mostly engineered to be sustainable cell-factories by genetic
manipulations alone. Here, by modulating the concentration of allosteric effectors,
we focus on increasing product formation without further burdening the cells with
increased expression of enzymes. Resorting to a novel 96-well microplate cultivation
system for cyanobacteria, and using lactate-producing strains of Synechocystis
PCC6803 expressing different l-lactate dehydrogenases (LDH), we titrated the effect
of 2,5-anhydro-mannitol supplementation. The latter acts in cells as a nonmetabolizable
analogue of fructose 1,6-bisphosphate, a known allosteric regulator of one of
the tested LDHs. In this strain (SAA023), we achieved over 2-fold increase of
lactate productivity. Furthermore, we observed that as carbon is increasingly
deviated during growth toward product formation, there is an increased fixation
rate in the population of spontaneous mutants harboring an impaired production
pathway. This is a challenge in the development of green cell factories, which
may be countered by the incorporation in biotechnological processes of strategies
such as the one pioneered here.
article_type: letter_note
author:
- first_name: Wei
full_name: Du, Wei
last_name: Du
- first_name: Andreas
full_name: Angermayr, Andreas
id: 4677C796-F248-11E8-B48F-1D18A9856A87
last_name: Angermayr
orcid: 0000-0001-8619-2223
- first_name: Joeri
full_name: Jongbloets, Joeri
last_name: Jongbloets
- first_name: Douwe
full_name: Molenaar, Douwe
last_name: Molenaar
- first_name: Herwig
full_name: Bachmann, Herwig
last_name: Bachmann
- first_name: Klaas
full_name: Hellingwerf, Klaas
last_name: Hellingwerf
- first_name: Filipe
full_name: Branco Dos Santos, Filipe
last_name: Branco Dos Santos
citation:
ama: Du W, Angermayr A, Jongbloets J, et al. Nonhierarchical flux regulation exposes
the fitness burden associated with lactate production in Synechocystis sp. PCC6803.
ACS Synthetic Biology. 2017;6(3):395-401. doi:10.1021/acssynbio.6b00235
apa: Du, W., Angermayr, A., Jongbloets, J., Molenaar, D., Bachmann, H., Hellingwerf,
K., & Branco Dos Santos, F. (2017). Nonhierarchical flux regulation exposes
the fitness burden associated with lactate production in Synechocystis sp. PCC6803.
ACS Synthetic Biology. American Chemical Society. https://doi.org/10.1021/acssynbio.6b00235
chicago: Du, Wei, Andreas Angermayr, Joeri Jongbloets, Douwe Molenaar, Herwig Bachmann,
Klaas Hellingwerf, and Filipe Branco Dos Santos. “Nonhierarchical Flux Regulation
Exposes the Fitness Burden Associated with Lactate Production in Synechocystis
Sp. PCC6803.” ACS Synthetic Biology. American Chemical Society, 2017. https://doi.org/10.1021/acssynbio.6b00235.
ieee: W. Du et al., “Nonhierarchical flux regulation exposes the fitness
burden associated with lactate production in Synechocystis sp. PCC6803,” ACS
Synthetic Biology, vol. 6, no. 3. American Chemical Society, pp. 395–401,
2017.
ista: Du W, Angermayr A, Jongbloets J, Molenaar D, Bachmann H, Hellingwerf K, Branco
Dos Santos F. 2017. Nonhierarchical flux regulation exposes the fitness burden
associated with lactate production in Synechocystis sp. PCC6803. ACS Synthetic
Biology. 6(3), 395–401.
mla: Du, Wei, et al. “Nonhierarchical Flux Regulation Exposes the Fitness Burden
Associated with Lactate Production in Synechocystis Sp. PCC6803.” ACS Synthetic
Biology, vol. 6, no. 3, American Chemical Society, 2017, pp. 395–401, doi:10.1021/acssynbio.6b00235.
short: W. Du, A. Angermayr, J. Jongbloets, D. Molenaar, H. Bachmann, K. Hellingwerf,
F. Branco Dos Santos, ACS Synthetic Biology 6 (2017) 395–401.
date_created: 2018-12-11T11:46:56Z
date_published: 2017-03-17T00:00:00Z
date_updated: 2021-01-12T08:01:21Z
day: '17'
department:
- _id: ToBo
doi: 10.1021/acssynbio.6b00235
external_id:
pmid:
- '27936615'
intvolume: ' 6'
issue: '3'
language:
- iso: eng
month: '03'
oa_version: None
page: 395 - 401
pmid: 1
publication: ACS Synthetic Biology
publication_identifier:
issn:
- '21615063'
publication_status: published
publisher: American Chemical Society
publist_id: '7298'
quality_controlled: '1'
scopus_import: 1
status: public
title: Nonhierarchical flux regulation exposes the fitness burden associated with
lactate production in Synechocystis sp. PCC6803
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2017'
...
---
_id: '521'
abstract:
- lang: eng
text: Let X and Y be proper metric spaces. We show that a coarsely n-to-1 map f:X→Y
induces an n-to-1 map of Higson coronas. This viewpoint turns out to be successful
in showing that the classical dimension raising theorems hold in large scale;
that is, if f:X→Y is a coarsely n-to-1 map between proper metric spaces X and
Y then asdim(Y)≤asdim(X)+n−1. Furthermore we introduce coarsely open coarsely
n-to-1 maps, which include the natural quotient maps via a finite group action,
and prove that they preserve the asymptotic dimension.
author:
- first_name: Kyle
full_name: Austin, Kyle
last_name: Austin
- first_name: Ziga
full_name: Virk, Ziga
id: 2E36B656-F248-11E8-B48F-1D18A9856A87
last_name: Virk
citation:
ama: Austin K, Virk Z. Higson compactification and dimension raising. Topology
and its Applications. 2017;215:45-57. doi:10.1016/j.topol.2016.10.005
apa: Austin, K., & Virk, Z. (2017). Higson compactification and dimension raising.
Topology and Its Applications. Elsevier. https://doi.org/10.1016/j.topol.2016.10.005
chicago: Austin, Kyle, and Ziga Virk. “Higson Compactification and Dimension Raising.”
Topology and Its Applications. Elsevier, 2017. https://doi.org/10.1016/j.topol.2016.10.005.
ieee: K. Austin and Z. Virk, “Higson compactification and dimension raising,” Topology
and its Applications, vol. 215. Elsevier, pp. 45–57, 2017.
ista: Austin K, Virk Z. 2017. Higson compactification and dimension raising. Topology
and its Applications. 215, 45–57.
mla: Austin, Kyle, and Ziga Virk. “Higson Compactification and Dimension Raising.”
Topology and Its Applications, vol. 215, Elsevier, 2017, pp. 45–57, doi:10.1016/j.topol.2016.10.005.
short: K. Austin, Z. Virk, Topology and Its Applications 215 (2017) 45–57.
date_created: 2018-12-11T11:46:56Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2021-01-12T08:01:21Z
day: '01'
department:
- _id: HeEd
doi: 10.1016/j.topol.2016.10.005
intvolume: ' 215'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1608.03954v1
month: '01'
oa: 1
oa_version: Submitted Version
page: 45 - 57
publication: Topology and its Applications
publication_identifier:
issn:
- '01668641'
publication_status: published
publisher: Elsevier
publist_id: '7299'
quality_controlled: '1'
status: public
title: Higson compactification and dimension raising
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 215
year: '2017'
...
---
_id: '525'
abstract:
- lang: eng
text: 'The Casparian strip is an important barrier regulating water and nutrient
uptake into root tissues. New research reveals two peptide signals and their co-receptors
play critical roles patterning and maintaining barrier integrity. '
acknowledgement: "Biotechnology and Biological Sciences Research Council:\tBBSRC BB/M001806/1
and BB/H020314/1\t"
author:
- first_name: Daniel
full_name: Daniel von Wangenheim
id: 49E91952-F248-11E8-B48F-1D18A9856A87
last_name: Von Wangenheim
orcid: 0000-0002-6862-1247
- first_name: Tatsuaki
full_name: Goh, Tatsuaki
last_name: Goh
- first_name: Daniela
full_name: Dietrich, Daniela
last_name: Dietrich
- first_name: Malcolm
full_name: Bennett, Malcolm J
last_name: Bennett
citation:
ama: 'von Wangenheim D, Goh T, Dietrich D, Bennett M. Plant biology: Building barriers…
in roots. Current Biology. 2017;27(5):R172-R174. doi:10.1016/j.cub.2017.01.060'
apa: 'von Wangenheim, D., Goh, T., Dietrich, D., & Bennett, M. (2017). Plant
biology: Building barriers… in roots. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2017.01.060'
chicago: 'Wangenheim, Daniel von, Tatsuaki Goh, Daniela Dietrich, and Malcolm Bennett.
“Plant Biology: Building Barriers… in Roots.” Current Biology. Cell Press,
2017. https://doi.org/10.1016/j.cub.2017.01.060.'
ieee: 'D. von Wangenheim, T. Goh, D. Dietrich, and M. Bennett, “Plant biology: Building
barriers… in roots,” Current Biology, vol. 27, no. 5. Cell Press, pp. R172–R174,
2017.'
ista: 'von Wangenheim D, Goh T, Dietrich D, Bennett M. 2017. Plant biology: Building
barriers… in roots. Current Biology. 27(5), R172–R174.'
mla: 'von Wangenheim, Daniel, et al. “Plant Biology: Building Barriers… in Roots.”
Current Biology, vol. 27, no. 5, Cell Press, 2017, pp. R172–74, doi:10.1016/j.cub.2017.01.060.'
short: D. von Wangenheim, T. Goh, D. Dietrich, M. Bennett, Current Biology 27 (2017)
R172–R174.
date_created: 2018-12-11T11:46:58Z
date_published: 2017-03-06T00:00:00Z
date_updated: 2021-01-12T08:01:23Z
day: '06'
doi: 10.1016/j.cub.2017.01.060
extern: 1
file:
- access_level: open_access
checksum: 81fd4475c5a2a2c6f4313beeab215ed9
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:18:11Z
date_updated: 2020-07-14T12:46:38Z
file_id: '5330'
file_name: IST-2018-983-v1+1_Plant_biology_Building_barriers__in_roots.pdf
file_size: 2840413
relation: main_file
file_date_updated: 2020-07-14T12:46:38Z
intvolume: ' 27'
issue: '5'
main_file_link:
- open_access: '1'
url: https://repository.ist.ac.at/id/eprint/983
month: '03'
oa: 1
page: R172 - R174
publication: Current Biology
publication_status: published
publisher: Cell Press
publist_id: '7294'
pubrep_id: '983'
quality_controlled: 0
status: public
title: 'Plant biology: Building barriers… in roots'
type: journal_article
volume: 27
year: '2017'
...
---
_id: '529'
abstract:
- lang: eng
text: The pituitary adenylyl cyclase-activating polypeptide (PACAP) and its G protein-coupled
receptors, PAC1, VPAC1 and VPAC2 form a system involved in a variety of biological
processes. Although some sympathetic stimulatory effects of this system have been
reported, its central cardiovascular regulatory properties are poorly characterized.
VPAC1 receptors are expressed in the nucleus ambiguus (nAmb), a key center controlling
cardiac parasympathetic tone. In this study, we report that selective VPAC1 activation
in rhodamine-labeled cardiac vagal preganglionic neurons of the rat nAmb produces
inositol 1,4,5-trisphosphate receptor-mediated Ca2+ mobilization, membrane depolarization
and activation of P/Q-type Ca2+ channels. In vivo, this pathway converges onto
transient reduction in heart rate of conscious rats. Therefore we demonstrate
a VPAC1-dependent mechanism in the central parasympathetic regulation of the heart
rate, adding to the complexity of PACAP-mediated cardiovascular modulation.
acknowledgement: This study was supported by startup funds from the Jefferson College
of Pharmacy, and by the National Institutes of Health DA023204 (to M.E.A) and P30
DA 013429 to Center for Substance Abuse Research, Temple University.
author:
- first_name: Florin
full_name: Gherghina, Florin L
last_name: Gherghina
- first_name: Andrei
full_name: Tica, Andrei A
last_name: Tica
- first_name: Elena
full_name: Elena Deliu
id: 37A40D7E-F248-11E8-B48F-1D18A9856A87
last_name: Deliu
orcid: 0000-0002-7370-5293
- first_name: Mary
full_name: Abood, Mary E
last_name: Abood
- first_name: G.
full_name: Brailoiu, G. Christina
last_name: Brailoiu
- first_name: Eugen
full_name: Brǎiloiu, Eugen
last_name: Brǎiloiu
citation:
ama: Gherghina F, Tica A, Deliu E, Abood M, Brailoiu G, Brǎiloiu E. Effects of VPAC1
activation in nucleus ambiguus neurons. Brain Research. 2017;1657:297-303.
doi:10.1016/j.brainres.2016.12.026
apa: Gherghina, F., Tica, A., Deliu, E., Abood, M., Brailoiu, G., & Brǎiloiu,
E. (2017). Effects of VPAC1 activation in nucleus ambiguus neurons. Brain Research.
Elsevier. https://doi.org/10.1016/j.brainres.2016.12.026
chicago: Gherghina, Florin, Andrei Tica, Elena Deliu, Mary Abood, G. Brailoiu, and
Eugen Brǎiloiu. “Effects of VPAC1 Activation in Nucleus Ambiguus Neurons.” Brain
Research. Elsevier, 2017. https://doi.org/10.1016/j.brainres.2016.12.026.
ieee: F. Gherghina, A. Tica, E. Deliu, M. Abood, G. Brailoiu, and E. Brǎiloiu, “Effects
of VPAC1 activation in nucleus ambiguus neurons,” Brain Research, vol.
1657. Elsevier, pp. 297–303, 2017.
ista: Gherghina F, Tica A, Deliu E, Abood M, Brailoiu G, Brǎiloiu E. 2017. Effects
of VPAC1 activation in nucleus ambiguus neurons. Brain Research. 1657, 297–303.
mla: Gherghina, Florin, et al. “Effects of VPAC1 Activation in Nucleus Ambiguus
Neurons.” Brain Research, vol. 1657, Elsevier, 2017, pp. 297–303, doi:10.1016/j.brainres.2016.12.026.
short: F. Gherghina, A. Tica, E. Deliu, M. Abood, G. Brailoiu, E. Brǎiloiu, Brain
Research 1657 (2017) 297–303.
date_created: 2018-12-11T11:46:59Z
date_published: 2017-02-15T00:00:00Z
date_updated: 2021-01-12T08:01:26Z
day: '15'
doi: 10.1016/j.brainres.2016.12.026
extern: 1
intvolume: ' 1657'
month: '02'
page: 297 - 303
publication: Brain Research
publication_status: published
publisher: Elsevier
publist_id: '7290'
quality_controlled: 0
status: public
title: Effects of VPAC1 activation in nucleus ambiguus neurons
type: journal_article
volume: 1657
year: '2017'
...
---
_id: '534'
abstract:
- lang: eng
text: We investigate the complexity of finding an embedded non-orientable surface
of Euler genus g in a triangulated 3-manifold. This problem occurs both as a natural
question in low-dimensional topology, and as a first non-trivial instance of embeddability
of complexes into 3-manifolds. We prove that the problem is NP-hard, thus adding
to the relatively few hardness results that are currently known in 3-manifold
topology. In addition, we show that the problem lies in NP when the Euler genus
g is odd, and we give an explicit algorithm in this case.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Benjamin
full_name: Burton, Benjamin
last_name: Burton
- first_name: Arnaud N
full_name: De Mesmay, Arnaud N
id: 3DB2F25C-F248-11E8-B48F-1D18A9856A87
last_name: De Mesmay
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: Burton B, de Mesmay AN, Wagner U. Finding non-orientable surfaces in 3-Manifolds.
Discrete & Computational Geometry. 2017;58(4):871-888. doi:10.1007/s00454-017-9900-0
apa: Burton, B., de Mesmay, A. N., & Wagner, U. (2017). Finding non-orientable
surfaces in 3-Manifolds. Discrete & Computational Geometry. Springer.
https://doi.org/10.1007/s00454-017-9900-0
chicago: Burton, Benjamin, Arnaud N de Mesmay, and Uli Wagner. “Finding Non-Orientable
Surfaces in 3-Manifolds.” Discrete & Computational Geometry. Springer,
2017. https://doi.org/10.1007/s00454-017-9900-0.
ieee: B. Burton, A. N. de Mesmay, and U. Wagner, “Finding non-orientable surfaces
in 3-Manifolds,” Discrete & Computational Geometry, vol. 58, no. 4.
Springer, pp. 871–888, 2017.
ista: Burton B, de Mesmay AN, Wagner U. 2017. Finding non-orientable surfaces in
3-Manifolds. Discrete & Computational Geometry. 58(4), 871–888.
mla: Burton, Benjamin, et al. “Finding Non-Orientable Surfaces in 3-Manifolds.”
Discrete & Computational Geometry, vol. 58, no. 4, Springer, 2017,
pp. 871–88, doi:10.1007/s00454-017-9900-0.
short: B. Burton, A.N. de Mesmay, U. Wagner, Discrete & Computational Geometry
58 (2017) 871–888.
date_created: 2018-12-11T11:47:01Z
date_published: 2017-06-09T00:00:00Z
date_updated: 2023-02-21T17:01:34Z
day: '09'
department:
- _id: UlWa
doi: 10.1007/s00454-017-9900-0
external_id:
arxiv:
- '1602.07907'
intvolume: ' 58'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1602.07907
month: '06'
oa: 1
oa_version: Preprint
page: 871 - 888
publication: Discrete & Computational Geometry
publication_identifier:
issn:
- '01795376'
publication_status: published
publisher: Springer
publist_id: '7283'
quality_controlled: '1'
related_material:
record:
- id: '1379'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: Finding non-orientable surfaces in 3-Manifolds
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 58
year: '2017'
...
---
_id: '538'
abstract:
- lang: ger
text: 'Optogenetik und Photopharmakologie ermöglichen präzise räumliche und zeitliche
Kontrolle von Proteinwechselwirkung und -funktion in Zellen und Tieren. Optogenetische
Methoden, die auf grünes Licht ansprechen und zum Trennen von Proteinkomplexen
geeignet sind, sind nichtweitläufig verfügbar, würden jedoch mehrfarbige Experimente
zur Beantwortung von biologischen Fragestellungen ermöglichen. Hier demonstrieren
wir die Verwendung von Cobalamin(Vitamin B12)-bindenden Domänen von bakteriellen
CarH-Transkriptionsfaktoren zur Grünlicht-induzierten Dissoziation von Rezeptoren.
Fusioniert mit dem Fibroblasten-W achstumsfaktor-Rezeptor 1 führten diese im Dunkeln
in kultivierten Zellen zu Signalaktivität durch Oligomerisierung, welche durch
Beleuchten umgehend aufgehoben wurde. In Zebrafischembryonen, die einen derartigen
Rezeptor exprimieren, ermöglichte grünes Licht die Kontrolle über abnormale Signalaktivität
während der Embryonalentwicklung. '
author:
- first_name: Stephanie
full_name: Kainrath, Stephanie
id: 32CFBA64-F248-11E8-B48F-1D18A9856A87
last_name: Kainrath
- first_name: Manuela
full_name: Stadler, Manuela
last_name: Stadler
- first_name: Eva
full_name: Gschaider-Reichhart, Eva
id: 3FEE232A-F248-11E8-B48F-1D18A9856A87
last_name: Gschaider-Reichhart
orcid: 0000-0002-7218-7738
- first_name: Martin
full_name: Distel, Martin
last_name: Distel
- first_name: Harald L
full_name: Janovjak, Harald L
id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
last_name: Janovjak
orcid: 0000-0002-8023-9315
citation:
ama: Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. Grünlicht-induzierte
Rezeptorinaktivierung durch Cobalamin-bindende Domänen. Angewandte Chemie.
2017;129(16):4679-4682. doi:10.1002/ange.201611998
apa: Kainrath, S., Stadler, M., Gschaider-Reichhart, E., Distel, M., & Janovjak,
H. L. (2017). Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende
Domänen. Angewandte Chemie. Wiley. https://doi.org/10.1002/ange.201611998
chicago: Kainrath, Stephanie, Manuela Stadler, Eva Gschaider-Reichhart, Martin Distel,
and Harald L Janovjak. “Grünlicht-Induzierte Rezeptorinaktivierung Durch Cobalamin-Bindende
Domänen.” Angewandte Chemie. Wiley, 2017. https://doi.org/10.1002/ange.201611998.
ieee: S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, and H. L. Janovjak,
“Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen,”
Angewandte Chemie, vol. 129, no. 16. Wiley, pp. 4679–4682, 2017.
ista: Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. 2017.
Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen. Angewandte
Chemie. 129(16), 4679–4682.
mla: Kainrath, Stephanie, et al. “Grünlicht-Induzierte Rezeptorinaktivierung Durch
Cobalamin-Bindende Domänen.” Angewandte Chemie, vol. 129, no. 16, Wiley,
2017, pp. 4679–82, doi:10.1002/ange.201611998.
short: S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, H.L. Janovjak,
Angewandte Chemie 129 (2017) 4679–4682.
date_created: 2018-12-11T11:47:02Z
date_published: 2017-05-20T00:00:00Z
date_updated: 2021-01-12T08:01:33Z
day: '20'
ddc:
- '571'
department:
- _id: CaGu
- _id: HaJa
doi: 10.1002/ange.201611998
ec_funded: 1
file:
- access_level: open_access
checksum: d66fee867e7cdbfa3fe276c2fb0778bb
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:24Z
date_updated: 2020-07-14T12:46:39Z
file_id: '5007'
file_name: IST-2018-932-v1+1_Kainrath_et_al-2017-Angewandte_Chemie.pdf
file_size: 1668557
relation: main_file
file_date_updated: 2020-07-14T12:46:39Z
has_accepted_license: '1'
intvolume: ' 129'
issue: '16'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 4679 - 4682
project:
- _id: 25548C20-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '303564'
name: Microbial Ion Channels for Synthetic Neurobiology
- _id: 255A6082-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W1232-B24
name: Molecular Drug Targets
publication: Angewandte Chemie
publication_status: published
publisher: Wiley
publist_id: '7279'
pubrep_id: '932'
quality_controlled: '1'
status: public
title: Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 129
year: '2017'
...
---
_id: '1216'
abstract:
- lang: eng
text: 'A framework fo r extracting features in 2D transient flows, based on the
acceleration field to ensure Galilean invariance is proposed in this paper. The
minima of the acceleration magnitude (a superset of acceleration zeros) are extracted
and discriminated into vortices and saddle points, based on the spectral properties
of the velocity Jacobian. The extraction of topological features is performed
with purely combinatorial algorithms from discrete computational topology. The
feature points are prioritized with persistence, as a physically meaningful importance
measure. These feature points are tracked in time with a robust algorithm for
tracking features. Thus, a space-time hierarchy of the minima is built and vortex
merging events are detected. We apply the acceleration feature extraction strategy
to three two-dimensional shear flows: (1) an incompressible periodic cylinder
wake, (2) an incompressible planar mixing layer and (3) a weakly compressible
planar jet. The vortex-like acceleration feature points are shown to be well aligned
with acceleration zeros, maxima of the vorticity magnitude, minima of the pressure
field and minima of λ2.'
acknowledgement: "The authors acknowledge funding of the German Re-\r\nsearch Foundation
\ (DFG) via the Collaborative Re-\r\nsearch Center (SFB 557) \\Control of
\ Complex Turbu-\r\nlent Shear Flows\" and the Emmy Noether Program.\r\nFurther
\ funding was provided by the Zuse Institute\r\nBerlin (ZIB), the DFG-CNRS
\ research group \\Noise\r\nGeneration in Turbulent Flows\" (2003{2010), the Chaire\r\nd'Excellence
'Closed-loop control of turbulent shear ows\r\nusing reduced-order models' (TUCOROM)
of the French\r\nAgence Nationale de la Recherche (ANR), and the Eu-\r\nropean Social
\ Fund (ESF App. No. 100098251). We\r\nthank the Ambrosys Ltd. Society
\ for Complex Sys-\r\ntems Management and the Bernd R. Noack Cybernet-\r\nics
\ Foundation for additional support. A part of this\r\nwork was performed
using HPC resources from GENCI-[CCRT/CINES/IDRIS] supported by the Grant 2011-\r\n[x2011020912"
author:
- first_name: Jens
full_name: Kasten, Jens
last_name: Kasten
- first_name: Jan
full_name: Reininghaus, Jan
id: 4505473A-F248-11E8-B48F-1D18A9856A87
last_name: Reininghaus
- first_name: Ingrid
full_name: Hotz, Ingrid
last_name: Hotz
- first_name: Hans
full_name: Hege, Hans
last_name: Hege
- first_name: Bernd
full_name: Noack, Bernd
last_name: Noack
- first_name: Guillaume
full_name: Daviller, Guillaume
last_name: Daviller
- first_name: Marek
full_name: Morzyński, Marek
last_name: Morzyński
citation:
ama: Kasten J, Reininghaus J, Hotz I, et al. Acceleration feature points of unsteady
shear flows. Archives of Mechanics. 2016;68(1):55-80.
apa: Kasten, J., Reininghaus, J., Hotz, I., Hege, H., Noack, B., Daviller, G., &
Morzyński, M. (2016). Acceleration feature points of unsteady shear flows. Archives
of Mechanics. Polish Academy of Sciences Publishing House.
chicago: Kasten, Jens, Jan Reininghaus, Ingrid Hotz, Hans Hege, Bernd Noack, Guillaume
Daviller, and Marek Morzyński. “Acceleration Feature Points of Unsteady Shear
Flows.” Archives of Mechanics. Polish Academy of Sciences Publishing House,
2016.
ieee: J. Kasten et al., “Acceleration feature points of unsteady shear flows,”
Archives of Mechanics, vol. 68, no. 1. Polish Academy of Sciences Publishing
House, pp. 55–80, 2016.
ista: Kasten J, Reininghaus J, Hotz I, Hege H, Noack B, Daviller G, Morzyński M.
2016. Acceleration feature points of unsteady shear flows. Archives of Mechanics.
68(1), 55–80.
mla: Kasten, Jens, et al. “Acceleration Feature Points of Unsteady Shear Flows.”
Archives of Mechanics, vol. 68, no. 1, Polish Academy of Sciences Publishing
House, 2016, pp. 55–80.
short: J. Kasten, J. Reininghaus, I. Hotz, H. Hege, B. Noack, G. Daviller, M. Morzyński,
Archives of Mechanics 68 (2016) 55–80.
date_created: 2018-12-11T11:50:46Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:49:09Z
day: '01'
department:
- _id: HeEd
intvolume: ' 68'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://am.ippt.pan.pl/am/article/viewFile/v68p55/pdf
month: '01'
oa: 1
oa_version: Published Version
page: 55 - 80
publication: Archives of Mechanics
publication_status: published
publisher: Polish Academy of Sciences Publishing House
publist_id: '6118'
quality_controlled: '1'
scopus_import: 1
status: public
title: Acceleration feature points of unsteady shear flows
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 68
year: '2016'
...
---
_id: '1217'
abstract:
- lang: eng
text: Understanding the regulation of T-cell responses during inflammation and auto-immunity
is fundamental for designing efficient therapeutic strategies against immune diseases.
In this regard, prostaglandin E 2 (PGE 2) is mostly considered a myeloid-derived
immunosuppressive molecule. We describe for the first time that T cells secrete
PGE 2 during T-cell receptor stimulation. In addition, we show that autocrine
PGE 2 signaling through EP receptors is essential for optimal CD4 + T-cell activation
in vitro and in vivo, and for T helper 1 (Th1) and regulatory T cell differentiation.
PGE 2 was found to provide additive co-stimulatory signaling through AKT activation.
Intravital multiphoton microscopy showed that triggering EP receptors in T cells
is also essential for the stability of T cell-dendritic cell (DC) interactions
and Th-cell accumulation in draining lymph nodes (LNs) during inflammation. We
further demonstrated that blocking EP receptors in T cells during the initial
phase of collagen-induced arthritis in mice resulted in a reduction of clinical
arthritis. This could be attributable to defective T-cell activation, accompanied
by a decline in activated and interferon-γ-producing CD4 + Th1 cells in draining
LNs. In conclusion, we prove that T lymphocytes secret picomolar concentrations
of PGE 2, which in turn provide additive co-stimulatory signaling, enabling T
cells to attain a favorable activation threshold. PGE 2 signaling in T cells is
also required for maintaining long and stable interactions with DCs within LNs.
Blockade of EP receptors in vivo impairs T-cell activation and development of
T cell-mediated inflammatory responses. This may have implications in various
pathophysiological settings.
acknowledgement: This manuscript has been supported by grants SAF2007-61716 and S-SAL-0159/2006
awarded by the Spanish Ministry of Science and Education and the Community of Madrid
to Dr M Fresno.
author:
- first_name: Vinatha
full_name: Sreeramkumar, Vinatha
last_name: Sreeramkumar
- first_name: Miroslav
full_name: Hons, Miroslav
id: 4167FE56-F248-11E8-B48F-1D18A9856A87
last_name: Hons
orcid: 0000-0002-6625-3348
- first_name: Carmen
full_name: Punzón, Carmen
last_name: Punzón
- first_name: Jens
full_name: Stein, Jens
last_name: Stein
- first_name: David
full_name: Sancho, David
last_name: Sancho
- first_name: Manuel
full_name: Fresno Forcelledo, Manuel
last_name: Fresno Forcelledo
- first_name: Natalia
full_name: Cuesta, Natalia
last_name: Cuesta
citation:
ama: Sreeramkumar V, Hons M, Punzón C, et al. Efficient T-cell priming and activation
requires signaling through prostaglandin E2 (EP) receptors. Immunology and
Cell Biology. 2016;94(1):39-51. doi:10.1038/icb.2015.62
apa: Sreeramkumar, V., Hons, M., Punzón, C., Stein, J., Sancho, D., Fresno Forcelledo,
M., & Cuesta, N. (2016). Efficient T-cell priming and activation requires
signaling through prostaglandin E2 (EP) receptors. Immunology and Cell Biology.
Nature Publishing Group. https://doi.org/10.1038/icb.2015.62
chicago: Sreeramkumar, Vinatha, Miroslav Hons, Carmen Punzón, Jens Stein, David
Sancho, Manuel Fresno Forcelledo, and Natalia Cuesta. “Efficient T-Cell Priming
and Activation Requires Signaling through Prostaglandin E2 (EP) Receptors.” Immunology
and Cell Biology. Nature Publishing Group, 2016. https://doi.org/10.1038/icb.2015.62.
ieee: V. Sreeramkumar et al., “Efficient T-cell priming and activation requires
signaling through prostaglandin E2 (EP) receptors,” Immunology and Cell Biology,
vol. 94, no. 1. Nature Publishing Group, pp. 39–51, 2016.
ista: Sreeramkumar V, Hons M, Punzón C, Stein J, Sancho D, Fresno Forcelledo M,
Cuesta N. 2016. Efficient T-cell priming and activation requires signaling through
prostaglandin E2 (EP) receptors. Immunology and Cell Biology. 94(1), 39–51.
mla: Sreeramkumar, Vinatha, et al. “Efficient T-Cell Priming and Activation Requires
Signaling through Prostaglandin E2 (EP) Receptors.” Immunology and Cell Biology,
vol. 94, no. 1, Nature Publishing Group, 2016, pp. 39–51, doi:10.1038/icb.2015.62.
short: V. Sreeramkumar, M. Hons, C. Punzón, J. Stein, D. Sancho, M. Fresno Forcelledo,
N. Cuesta, Immunology and Cell Biology 94 (2016) 39–51.
date_created: 2018-12-11T11:50:46Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:49:09Z
day: '01'
department:
- _id: MiSi
doi: 10.1038/icb.2015.62
intvolume: ' 94'
issue: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 39 - 51
publication: Immunology and Cell Biology
publication_status: published
publisher: Nature Publishing Group
publist_id: '6116'
quality_controlled: '1'
scopus_import: 1
status: public
title: Efficient T-cell priming and activation requires signaling through prostaglandin
E2 (EP) receptors
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 94
year: '2016'
...
---
_id: '1218'
abstract:
- lang: eng
text: Investigating the physiology of cyanobacteria cultured under a diel light
regime is relevant for a better understanding of the resulting growth characteristics
and for specific biotechnological applications that are foreseen for these photosynthetic
organisms. Here, we present the results of a multiomics study of the model cyanobacterium
Synechocystis sp. strain PCC 6803, cultured in a lab-scale photobioreactor in
physiological conditions relevant for large-scale culturing. The culture was sparged
withN2 andCO2, leading to an anoxic environment during the dark period. Growth
followed the availability of light. Metabolite analysis performed with 1Hnuclear
magnetic resonance analysis showed that amino acids involved in nitrogen and sulfur
assimilation showed elevated levels in the light. Most protein levels, analyzed
through mass spectrometry, remained rather stable. However, several high-light-response
proteins and stress-response proteins showed distinct changes at the onset of
the light period. Microarray-based transcript analysis found common patterns of~56%
of the transcriptome following the diel regime. These oscillating transcripts
could be grouped coarsely into genes that were upregulated and downregulated in
the dark period. The accumulated glycogen was degraded in the anaerobic environment
in the dark. A small part was degraded gradually, reflecting basic maintenance
requirements of the cells in darkness. Surprisingly, the largest part was degraded
rapidly in a short time span at the end of the dark period. This degradation could
allow rapid formation of metabolic intermediates at the end of the dark period,
preparing the cells for the resumption of growth at the start of the light period.
acknowledgement: "Dutch Ministry of Economic Affairs, Agriculture, and Innovation
through the program BioSolar CellsS. Andreas Angermayr,Pascal van Alphen, Klaas
J. Hellingwerf\r\nWe thank Naira Quintana (presently at Rousselot, Belgium) for
the ini-\r\ntiative at the 10th Cyanobacterial Molecular Biology Workshop\r\n(CMBW),
June 2010, Lake Arrowhead, Los Angeles, CA, USA, to start the\r\ncollaborative endeavor
reported here. We thank Timo Maarleveld from\r\nCWI/VU (Amsterdam) for a custom-made
Python script handling the output from the NMR analysis and for evaluating and visualizing
the\r\nseparate metabolites for their evaluation. We thank Rob Verpoorte from\r\nLeiden
University (metabolome analysis) and Hans Aerts from the AMC\r\n(proteome analysis)
for lab space and equipment. We thank Robert Leh-\r\nmann (Humboldt University Berlin)
and Ilka Axmann (University of\r\nDüsseldorf) for sharing the R-code for the LOS
transformation of the\r\ntranscript data. We thank Hans C. P. Matthijs from IBED
for inspiring\r\ndialogues and insightful thoughts on continuous culturing of cyanobac-\r\nteria.
We thank Sandra Waaijenborg for performing the transcript nor-\r\nmalization and
Johan Westerhuis from BDA, Jeroen van der Steen and\r\nFilipe Branco dos Santos
from MMP, and Lucas Stal from IBED/NIOZ for\r\nhelpful discussions. We thank Milou
Schuurmans from MMP for help\r\nwith sampling and glycogen determination. We thank
the members of the\r\nRNA Biology & Applied Bioinformatics group at SILS, in particular
Selina\r\nvan Leeuwen, Elisa Hoekstra, and Martijs Jonker, for the microarray anal-\r\nysis.
We thank the reviewers of this work for their insightful comments\r\nwhich improved
the quality of the manuscript. This work, including the efforts of S. Andreas Angermayr,
Pascal van\r\nAlphen, and Klaas J. Hellingwerf, was funded by Dutch Ministry of
Eco-\r\nnomic Affairs, Agriculture, and Innovation through the program BioSolar\r\nCells."
author:
- first_name: Andreas
full_name: Angermayr, Andreas
id: 4677C796-F248-11E8-B48F-1D18A9856A87
last_name: Angermayr
orcid: 0000-0001-8619-2223
- first_name: Pascal
full_name: Van Alphen, Pascal
last_name: Van Alphen
- first_name: Dicle
full_name: Hasdemir, Dicle
last_name: Hasdemir
- first_name: Gertjan
full_name: Kramer, Gertjan
last_name: Kramer
- first_name: Muzamal
full_name: Iqbal, Muzamal
last_name: Iqbal
- first_name: Wilmar
full_name: Van Grondelle, Wilmar
last_name: Van Grondelle
- first_name: Huub
full_name: Hoefsloot, Huub
last_name: Hoefsloot
- first_name: Younghae
full_name: Choi, Younghae
last_name: Choi
- first_name: Klaas
full_name: Hellingwerf, Klaas
last_name: Hellingwerf
citation:
ama: Angermayr A, Van Alphen P, Hasdemir D, et al. Culturing synechocystis sp. Strain
pcc 6803 with N2 and CO2 in a diel regime reveals multiphase glycogen dynamics
with low maintenance costs. Applied and Environmental Microbiology. 2016;82(14):4180-4189.
doi:10.1128/AEM.00256-16
apa: Angermayr, A., Van Alphen, P., Hasdemir, D., Kramer, G., Iqbal, M., Van Grondelle,
W., … Hellingwerf, K. (2016). Culturing synechocystis sp. Strain pcc 6803 with
N2 and CO2 in a diel regime reveals multiphase glycogen dynamics with low maintenance
costs. Applied and Environmental Microbiology. American Society for Microbiology.
https://doi.org/10.1128/AEM.00256-16
chicago: Angermayr, Andreas, Pascal Van Alphen, Dicle Hasdemir, Gertjan Kramer,
Muzamal Iqbal, Wilmar Van Grondelle, Huub Hoefsloot, Younghae Choi, and Klaas
Hellingwerf. “Culturing Synechocystis Sp. Strain Pcc 6803 with N2 and CO2 in a
Diel Regime Reveals Multiphase Glycogen Dynamics with Low Maintenance Costs.”
Applied and Environmental Microbiology. American Society for Microbiology,
2016. https://doi.org/10.1128/AEM.00256-16.
ieee: A. Angermayr et al., “Culturing synechocystis sp. Strain pcc 6803 with
N2 and CO2 in a diel regime reveals multiphase glycogen dynamics with low maintenance
costs,” Applied and Environmental Microbiology, vol. 82, no. 14. American
Society for Microbiology, pp. 4180–4189, 2016.
ista: Angermayr A, Van Alphen P, Hasdemir D, Kramer G, Iqbal M, Van Grondelle W,
Hoefsloot H, Choi Y, Hellingwerf K. 2016. Culturing synechocystis sp. Strain pcc
6803 with N2 and CO2 in a diel regime reveals multiphase glycogen dynamics with
low maintenance costs. Applied and Environmental Microbiology. 82(14), 4180–4189.
mla: Angermayr, Andreas, et al. “Culturing Synechocystis Sp. Strain Pcc 6803 with
N2 and CO2 in a Diel Regime Reveals Multiphase Glycogen Dynamics with Low Maintenance
Costs.” Applied and Environmental Microbiology, vol. 82, no. 14, American
Society for Microbiology, 2016, pp. 4180–89, doi:10.1128/AEM.00256-16.
short: A. Angermayr, P. Van Alphen, D. Hasdemir, G. Kramer, M. Iqbal, W. Van Grondelle,
H. Hoefsloot, Y. Choi, K. Hellingwerf, Applied and Environmental Microbiology
82 (2016) 4180–4189.
date_created: 2018-12-11T11:50:46Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2021-01-12T06:49:10Z
day: '01'
department:
- _id: ToBo
doi: 10.1128/AEM.00256-16
intvolume: ' 82'
issue: '14'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4959195/
month: '07'
oa: 1
oa_version: Submitted Version
page: 4180 - 4189
publication: Applied and Environmental Microbiology
publication_status: published
publisher: American Society for Microbiology
publist_id: '6117'
quality_controlled: '1'
scopus_import: 1
status: public
title: Culturing synechocystis sp. Strain pcc 6803 with N2 and CO2 in a diel regime
reveals multiphase glycogen dynamics with low maintenance costs
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 82
year: '2016'
...
---
_id: '1219'
abstract:
- lang: eng
text: We consider N×N random matrices of the form H = W + V where W is a real symmetric
or complex Hermitian Wigner matrix and V is a random or deterministic, real, diagonal
matrix whose entries are independent of W. We assume subexponential decay for
the matrix entries of W, and we choose V so that the eigenvalues ofW and V are
typically of the same order. For a large class of diagonal matrices V , we show
that the local statistics in the bulk of the spectrum are universal in the limit
of large N.
acknowledgement: "J.C. was supported in part by National Research Foundation of Korea
Grant 2011-0013474 and TJ Park Junior Faculty Fellowship.\r\nK.S. was supported
by ERC Advanced Grant RANMAT, No. 338804, and the \"Fund for Math.\"\r\nB.S. was
supported by NSF GRFP Fellowship DGE-1144152.\r\nH.Y. was supported in part by NSF
Grant DMS-13-07444 and Simons investigator fellowship. We thank Paul Bourgade, László
Erd ̋os and Antti Knowles for helpful comments. We are grateful to the Taida Institute
for Mathematical\r\nSciences and National Taiwan Universality for their hospitality
during part of this\r\nresearch. We thank Thomas Spencer and the Institute for Advanced
Study for their\r\nhospitality during the academic year 2013–2014. "
author:
- first_name: Jioon
full_name: Lee, Jioon
last_name: Lee
- first_name: Kevin
full_name: Schnelli, Kevin
id: 434AD0AE-F248-11E8-B48F-1D18A9856A87
last_name: Schnelli
orcid: 0000-0003-0954-3231
- first_name: Ben
full_name: Stetler, Ben
last_name: Stetler
- first_name: Horngtzer
full_name: Yau, Horngtzer
last_name: Yau
citation:
ama: Lee J, Schnelli K, Stetler B, Yau H. Bulk universality for deformed wigner
matrices. Annals of Probability. 2016;44(3):2349-2425. doi:10.1214/15-AOP1023
apa: Lee, J., Schnelli, K., Stetler, B., & Yau, H. (2016). Bulk universality
for deformed wigner matrices. Annals of Probability. Institute of Mathematical
Statistics. https://doi.org/10.1214/15-AOP1023
chicago: Lee, Jioon, Kevin Schnelli, Ben Stetler, and Horngtzer Yau. “Bulk Universality
for Deformed Wigner Matrices.” Annals of Probability. Institute of Mathematical
Statistics, 2016. https://doi.org/10.1214/15-AOP1023.
ieee: J. Lee, K. Schnelli, B. Stetler, and H. Yau, “Bulk universality for deformed
wigner matrices,” Annals of Probability, vol. 44, no. 3. Institute of Mathematical
Statistics, pp. 2349–2425, 2016.
ista: Lee J, Schnelli K, Stetler B, Yau H. 2016. Bulk universality for deformed
wigner matrices. Annals of Probability. 44(3), 2349–2425.
mla: Lee, Jioon, et al. “Bulk Universality for Deformed Wigner Matrices.” Annals
of Probability, vol. 44, no. 3, Institute of Mathematical Statistics, 2016,
pp. 2349–425, doi:10.1214/15-AOP1023.
short: J. Lee, K. Schnelli, B. Stetler, H. Yau, Annals of Probability 44 (2016)
2349–2425.
date_created: 2018-12-11T11:50:47Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:49:10Z
day: '01'
department:
- _id: LaEr
doi: 10.1214/15-AOP1023
ec_funded: 1
intvolume: ' 44'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1405.6634
month: '01'
oa: 1
oa_version: Preprint
page: 2349 - 2425
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Annals of Probability
publication_status: published
publisher: Institute of Mathematical Statistics
publist_id: '6115'
quality_controlled: '1'
scopus_import: 1
status: public
title: Bulk universality for deformed wigner matrices
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 44
year: '2016'
...
---
_id: '122'
abstract:
- lang: eng
text: Four rigid panels connected by hinges that meet at a point form a four-vertex,
the fundamental building block of origami metamaterials. Most materials designed
so far are based on the same four-vertex geometry, and little is known regarding
how different geometries affect folding behavior. Here we systematically categorize
and analyze the geometries and resulting folding motions of Euclidean four-vertices.
Comparing the relative sizes of sector angles, we identify three types of generic
vertices and two accompanying subtypes. We determine which folds can fully close
and the possible mountain-valley assignments. Next, we consider what occurs when
sector angles or sums thereof are set equal, which results in 16 special vertex
types. One of these, flat-foldable vertices, has been studied extensively, but
we show that a wide variety of qualitatively different folding motions exist for
the other 15 special and 3 generic types. Our work establishes a straightforward
set of rules for understanding the folding motion of both generic and special
four-vertices and serves as a roadmap for designing origami metamaterials.
acknowledgement: This work is part of the research programme of the Foundation for
Fundamental Research on Matter (FOM), which is part of the Netherlands Organisation
for Scientific Research (NWO).
article_number: '023003'
arxiv: 1
author:
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
- first_name: Martin
full_name: Van Hecke, Martin
last_name: Van Hecke
citation:
ama: 'Waitukaitis SR, Van Hecke M. Origami building blocks: Generic and special
four-vertices. Physical Review E - Statistical, Nonlinear, and Soft Matter
Physics. 2016;93(2). doi:10.1103/PhysRevE.93.023003'
apa: 'Waitukaitis, S. R., & Van Hecke, M. (2016). Origami building blocks: Generic
and special four-vertices. Physical Review E - Statistical, Nonlinear, and
Soft Matter Physics. American Physiological Society. https://doi.org/10.1103/PhysRevE.93.023003'
chicago: 'Waitukaitis, Scott R, and Martin Van Hecke. “Origami Building Blocks:
Generic and Special Four-Vertices.” Physical Review E - Statistical, Nonlinear,
and Soft Matter Physics. American Physiological Society, 2016. https://doi.org/10.1103/PhysRevE.93.023003.'
ieee: 'S. R. Waitukaitis and M. Van Hecke, “Origami building blocks: Generic and
special four-vertices,” Physical Review E - Statistical, Nonlinear, and Soft
Matter Physics, vol. 93, no. 2. American Physiological Society, 2016.'
ista: 'Waitukaitis SR, Van Hecke M. 2016. Origami building blocks: Generic and special
four-vertices. Physical Review E - Statistical, Nonlinear, and Soft Matter Physics.
93(2), 023003.'
mla: 'Waitukaitis, Scott R., and Martin Van Hecke. “Origami Building Blocks: Generic
and Special Four-Vertices.” Physical Review E - Statistical, Nonlinear, and
Soft Matter Physics, vol. 93, no. 2, 023003, American Physiological Society,
2016, doi:10.1103/PhysRevE.93.023003.'
short: S.R. Waitukaitis, M. Van Hecke, Physical Review E - Statistical, Nonlinear,
and Soft Matter Physics 93 (2016).
date_created: 2018-12-11T11:44:44Z
date_published: 2016-02-03T00:00:00Z
date_updated: 2021-01-12T06:49:10Z
day: '03'
doi: 10.1103/PhysRevE.93.023003
extern: '1'
external_id:
arxiv:
- '1507.08442'
intvolume: ' 93'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1507.08442
month: '02'
oa: 1
oa_version: Preprint
publication: Physical Review E - Statistical, Nonlinear, and Soft Matter Physics
publication_status: published
publisher: American Physiological Society
publist_id: '7932'
quality_controlled: '1'
status: public
title: 'Origami building blocks: Generic and special four-vertices'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 93
year: '2016'
...
---
_id: '1220'
abstract:
- lang: eng
text: Theoretical and numerical aspects of aerodynamic efficiency of propulsion
systems coupled to the boundary layer of a fuselage are studied. We discuss the
effects of local flow fields, which are affected both by conservative flow acceleration
as well as total pressure losses, on the efficiency of boundary layer immersed
propulsion devices. We introduce the concept of a boundary layer retardation turbine
that helps reduce skin friction over the fuselage. We numerically investigate
efficiency gains offered by boundary layer and wake interacting devices. We discuss
the results in terms of a total energy consumption framework and show that efficiency
gains of any device depend on all the other elements of the propulsion system.
author:
- first_name: Gregor
full_name: Mikić, Gregor
last_name: Mikić
- first_name: Alex
full_name: Stoll, Alex
last_name: Stoll
- first_name: Joe
full_name: Bevirt, Joe
last_name: Bevirt
- first_name: Rok
full_name: Grah, Rok
id: 483E70DE-F248-11E8-B48F-1D18A9856A87
last_name: Grah
orcid: 0000-0003-2539-3560
- first_name: Mark
full_name: Moore, Mark
last_name: Moore
citation:
ama: 'Mikić G, Stoll A, Bevirt J, Grah R, Moore M. Fuselage boundary layer ingestion
propulsion applied to a thin haul commuter aircraft for optimal efficiency. In:
AIAA; 2016:1-19. doi:10.2514/6.2016-3764'
apa: 'Mikić, G., Stoll, A., Bevirt, J., Grah, R., & Moore, M. (2016). Fuselage
boundary layer ingestion propulsion applied to a thin haul commuter aircraft for
optimal efficiency (pp. 1–19). Presented at the AIAA: Aviation Technology, Integration,
and Operations Conference, Washington, D.C., USA: AIAA. https://doi.org/10.2514/6.2016-3764'
chicago: Mikić, Gregor, Alex Stoll, Joe Bevirt, Rok Grah, and Mark Moore. “Fuselage
Boundary Layer Ingestion Propulsion Applied to a Thin Haul Commuter Aircraft for
Optimal Efficiency,” 1–19. AIAA, 2016. https://doi.org/10.2514/6.2016-3764.
ieee: 'G. Mikić, A. Stoll, J. Bevirt, R. Grah, and M. Moore, “Fuselage boundary
layer ingestion propulsion applied to a thin haul commuter aircraft for optimal
efficiency,” presented at the AIAA: Aviation Technology, Integration, and Operations
Conference, Washington, D.C., USA, 2016, pp. 1–19.'
ista: 'Mikić G, Stoll A, Bevirt J, Grah R, Moore M. 2016. Fuselage boundary layer
ingestion propulsion applied to a thin haul commuter aircraft for optimal efficiency.
AIAA: Aviation Technology, Integration, and Operations Conference, 1–19.'
mla: Mikić, Gregor, et al. Fuselage Boundary Layer Ingestion Propulsion Applied
to a Thin Haul Commuter Aircraft for Optimal Efficiency. AIAA, 2016, pp. 1–19,
doi:10.2514/6.2016-3764.
short: G. Mikić, A. Stoll, J. Bevirt, R. Grah, M. Moore, in:, AIAA, 2016, pp. 1–19.
conference:
end_date: 2016-06-17
location: Washington, D.C., USA
name: 'AIAA: Aviation Technology, Integration, and Operations Conference'
start_date: 2016-06-13
date_created: 2018-12-11T11:50:47Z
date_published: 2016-06-01T00:00:00Z
date_updated: 2023-02-21T10:17:50Z
day: '01'
department:
- _id: CaGu
- _id: GaTk
doi: 10.2514/6.2016-3764
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://ntrs.nasa.gov/search.jsp?R=20160010167&hterms=Fuselage+boundary+layer+ingestion+propulsion+applied+thin+haul+commuter+aircraft+optimal+efficiency&qs=N%3D0%26Ntk%3DAll%26Ntt%3DFuselage%2520boundary%2520layer%2520ingestion%2520propulsion%2520applied%2520to%2520a%2520thin%2520haul%2520commuter%2520aircraft%2520for%2520optimal%2520efficiency%26Ntx%3Dmode%2520matchallpartial%26Nm%3D123%7CCollection%7CNASA%2520STI%7C%7C17%7CCollection%7CNACA
month: '06'
oa: 1
oa_version: Preprint
page: 1 - 19
publication_status: published
publisher: AIAA
publist_id: '6114'
quality_controlled: '1'
scopus_import: 1
status: public
title: Fuselage boundary layer ingestion propulsion applied to a thin haul commuter
aircraft for optimal efficiency
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '1221'
abstract:
- lang: eng
text: The Auxin Binding Protein 1 (ABP1) is one of the most studied proteins in
plants. Since decades ago, it has been the prime receptor candidate for the plant
hormone auxin with a plethora of described functions in auxin signaling and development.
The developmental importance of ABP1 has recently been questioned by identification
of Arabidopsis thaliana abp1 knock-out alleles that show no obvious phenotypes
under normal growth conditions. In this study, we examined the contradiction between
the normal growth and development of the abp1 knock-outs and the strong morphological
defects observed in three different ethanol-inducible abp1 knock-down mutants
( abp1-AS, SS12K, SS12S). By analyzing segregating populations of abp1 knock-out
vs. abp1 knock-down crosses we show that the strong morphological defects that
were believed to be the result of conditional down-regulation of ABP1 can be reproduced
also in the absence of the functional ABP1 protein. This data suggests that the
phenotypes in abp1 knock-down lines are due to the off-target effects and asks
for further reflections on the biological function of ABP1 or alternative explanations
for the missing phenotypic defects in the abp1 loss-of-function alleles.
acknowledgement: "This work was supported by ERC Independent Research grant (ERC-2011-StG-20101109-PSDP
to JF). JM internship was supported by the grant “Action Austria – Slovakia”. MG
was supported by the scholarship \"Stipendien der Stipendienstiftung der Republik
Österreich\". Work by EH and CPR were supported by ANR blanc ANR-14-CE11-0018. We
would like to thank Mark Estelle and Yunde Zhao for provid\r\n-\r\ning \r\nabp1-c1\r\n,
\r\nabp1-TD1 \r\nand \r\nabp1-WTc1 \r\nseeds. We thank Emeline \r\nHuault for technical
assistance."
article_number: '86'
article_processing_charge: No
article_type: original
author:
- first_name: Jaroslav
full_name: Michalko, Jaroslav
id: 483727CA-F248-11E8-B48F-1D18A9856A87
last_name: Michalko
- first_name: Matous
full_name: Glanc, Matous
id: 1AE1EA24-02D0-11E9-9BAA-DAF4881429F2
last_name: Glanc
orcid: 0000-0003-0619-7783
- first_name: Catherine
full_name: Perrot Rechenmann, Catherine
last_name: Perrot Rechenmann
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Michalko J, Glanc M, Perrot Rechenmann C, Friml J. Strong morphological defects
in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional
ABP1 protein. F1000 Research . 2016;5. doi:10.12688/f1000research.7654.1
apa: Michalko, J., Glanc, M., Perrot Rechenmann, C., & Friml, J. (2016). Strong
morphological defects in conditional Arabidopsis abp1 knock-down mutants generated
in absence of functional ABP1 protein. F1000 Research . F1000 Research.
https://doi.org/10.12688/f1000research.7654.1
chicago: Michalko, Jaroslav, Matous Glanc, Catherine Perrot Rechenmann, and Jiří
Friml. “Strong Morphological Defects in Conditional Arabidopsis Abp1 Knock-down
Mutants Generated in Absence of Functional ABP1 Protein.” F1000 Research .
F1000 Research, 2016. https://doi.org/10.12688/f1000research.7654.1.
ieee: J. Michalko, M. Glanc, C. Perrot Rechenmann, and J. Friml, “Strong morphological
defects in conditional Arabidopsis abp1 knock-down mutants generated in absence
of functional ABP1 protein,” F1000 Research , vol. 5. F1000 Research, 2016.
ista: Michalko J, Glanc M, Perrot Rechenmann C, Friml J. 2016. Strong morphological
defects in conditional Arabidopsis abp1 knock-down mutants generated in absence
of functional ABP1 protein. F1000 Research . 5, 86.
mla: Michalko, Jaroslav, et al. “Strong Morphological Defects in Conditional Arabidopsis
Abp1 Knock-down Mutants Generated in Absence of Functional ABP1 Protein.” F1000
Research , vol. 5, 86, F1000 Research, 2016, doi:10.12688/f1000research.7654.1.
short: J. Michalko, M. Glanc, C. Perrot Rechenmann, J. Friml, F1000 Research 5
(2016).
date_created: 2018-12-11T11:50:47Z
date_published: 2016-01-20T00:00:00Z
date_updated: 2025-05-07T11:12:30Z
day: '20'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.12688/f1000research.7654.1
ec_funded: 1
file:
- access_level: open_access
checksum: c9e50bb6096a7ba4a832969935820f19
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:33Z
date_updated: 2020-07-14T12:44:39Z
file_id: '5154'
file_name: IST-2016-711-v1+1_770cf1e0-612f-4e85-a500-54b6349fbbab_7654_-_jaroslav_michalko.pdf
file_size: 2990459
relation: main_file
file_date_updated: 2020-07-14T12:44:39Z
has_accepted_license: '1'
intvolume: ' 5'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
publication: 'F1000 Research '
publication_status: published
publisher: F1000 Research
publist_id: '6113'
pubrep_id: '711'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants
generated in absence of functional ABP1 protein
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2016'
...
---
_id: '1222'
abstract:
- lang: eng
text: We consider packings of congruent circles on a square flat torus, i.e., periodic
(w.r.t. a square lattice) planar circle packings, with the maximal circle radius.
This problem is interesting due to a practical reason—the problem of “super resolution
of images.” We have found optimal arrangements for N=6, 7 and 8 circles. Surprisingly,
for the case N=7 there are three different optimal arrangements. Our proof is
based on a computer enumeration of toroidal irreducible contact graphs.
acknowledgement: We wish to thank Alexey Tarasov, Vladislav Volkov and Brittany Fasy
for some useful comments and remarks, and especially Thom Sulanke for modifying
surftri to suit our purposes. Oleg R. Musin was partially supported by the NSF Grant
DMS-1400876 and by the RFBR Grant 15-01-99563. Anton V. Nikitenko was supported
by the Chebyshev Laboratory (Department of Mathematics and Mechanics, St. Petersburg
State University) under RF Government Grant 11.G34.31.0026.
author:
- first_name: Oleg
full_name: Musin, Oleg
last_name: Musin
- first_name: Anton
full_name: Nikitenko, Anton
id: 3E4FF1BA-F248-11E8-B48F-1D18A9856A87
last_name: Nikitenko
citation:
ama: Musin O, Nikitenko A. Optimal packings of congruent circles on a square flat
torus. Discrete & Computational Geometry. 2016;55(1):1-20. doi:10.1007/s00454-015-9742-6
apa: Musin, O., & Nikitenko, A. (2016). Optimal packings of congruent circles
on a square flat torus. Discrete & Computational Geometry. Springer.
https://doi.org/10.1007/s00454-015-9742-6
chicago: Musin, Oleg, and Anton Nikitenko. “Optimal Packings of Congruent Circles
on a Square Flat Torus.” Discrete & Computational Geometry. Springer,
2016. https://doi.org/10.1007/s00454-015-9742-6.
ieee: O. Musin and A. Nikitenko, “Optimal packings of congruent circles on a square
flat torus,” Discrete & Computational Geometry, vol. 55, no. 1. Springer,
pp. 1–20, 2016.
ista: Musin O, Nikitenko A. 2016. Optimal packings of congruent circles on a square
flat torus. Discrete & Computational Geometry. 55(1), 1–20.
mla: Musin, Oleg, and Anton Nikitenko. “Optimal Packings of Congruent Circles on
a Square Flat Torus.” Discrete & Computational Geometry, vol. 55, no.
1, Springer, 2016, pp. 1–20, doi:10.1007/s00454-015-9742-6.
short: O. Musin, A. Nikitenko, Discrete & Computational Geometry 55 (2016) 1–20.
date_created: 2018-12-11T11:50:48Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:49:11Z
day: '01'
department:
- _id: HeEd
doi: 10.1007/s00454-015-9742-6
intvolume: ' 55'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1212.0649
month: '01'
oa: 1
oa_version: Preprint
page: 1 - 20
publication: Discrete & Computational Geometry
publication_status: published
publisher: Springer
publist_id: '6111'
quality_controlled: '1'
scopus_import: 1
status: public
title: Optimal packings of congruent circles on a square flat torus
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 55
year: '2016'
...
---
_id: '1223'
abstract:
- lang: eng
text: We consider a random Schrödinger operator on the binary tree with a random
potential which is the sum of a random radially symmetric potential, Qr, and a
random transversally periodic potential, κQt, with coupling constant κ. Using
a new one-dimensional dynamical systems approach combined with Jensen's inequality
in hyperbolic space (our key estimate) we obtain a fractional moment estimate
proving localization for small and large κ. Together with a previous result we
therefore obtain a model with two Anderson transitions, from localization to delocalization
and back to localization, when increasing κ. As a by-product we also have a partially
new proof of one-dimensional Anderson localization at any disorder.
author:
- first_name: Richard
full_name: Froese, Richard
last_name: Froese
- first_name: Darrick
full_name: Lee, Darrick
last_name: Lee
- first_name: Christian
full_name: Sadel, Christian
id: 4760E9F8-F248-11E8-B48F-1D18A9856A87
last_name: Sadel
orcid: 0000-0001-8255-3968
- first_name: Wolfgang
full_name: Spitzer, Wolfgang
last_name: Spitzer
- first_name: Günter
full_name: Stolz, Günter
last_name: Stolz
citation:
ama: Froese R, Lee D, Sadel C, Spitzer W, Stolz G. Localization for transversally
periodic random potentials on binary trees. Journal of Spectral Theory.
2016;6(3):557-600. doi:10.4171/JST/132
apa: Froese, R., Lee, D., Sadel, C., Spitzer, W., & Stolz, G. (2016). Localization
for transversally periodic random potentials on binary trees. Journal of Spectral
Theory. European Mathematical Society. https://doi.org/10.4171/JST/132
chicago: Froese, Richard, Darrick Lee, Christian Sadel, Wolfgang Spitzer, and Günter
Stolz. “Localization for Transversally Periodic Random Potentials on Binary Trees.”
Journal of Spectral Theory. European Mathematical Society, 2016. https://doi.org/10.4171/JST/132.
ieee: R. Froese, D. Lee, C. Sadel, W. Spitzer, and G. Stolz, “Localization for transversally
periodic random potentials on binary trees,” Journal of Spectral Theory,
vol. 6, no. 3. European Mathematical Society, pp. 557–600, 2016.
ista: Froese R, Lee D, Sadel C, Spitzer W, Stolz G. 2016. Localization for transversally
periodic random potentials on binary trees. Journal of Spectral Theory. 6(3),
557–600.
mla: Froese, Richard, et al. “Localization for Transversally Periodic Random Potentials
on Binary Trees.” Journal of Spectral Theory, vol. 6, no. 3, European Mathematical
Society, 2016, pp. 557–600, doi:10.4171/JST/132.
short: R. Froese, D. Lee, C. Sadel, W. Spitzer, G. Stolz, Journal of Spectral Theory
6 (2016) 557–600.
date_created: 2018-12-11T11:50:48Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:49:12Z
day: '01'
department:
- _id: LaEr
doi: 10.4171/JST/132
intvolume: ' 6'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1408.3961
month: '01'
oa: 1
oa_version: Preprint
page: 557 - 600
publication: Journal of Spectral Theory
publication_status: published
publisher: European Mathematical Society
publist_id: '6112'
quality_controlled: '1'
scopus_import: 1
status: public
title: Localization for transversally periodic random potentials on binary trees
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2016'
...